+F Repair protein KO
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DNA Repair and Recombination Proteins - Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
C BER (base exicision repair)
D DNA glycosylases
E PFREUD_17090 ung; Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E PFREUD_17180 mpg; 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E PFREUD_20170 mutY; MutY, A/G-specific DNA glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E PFREUD_19440 nth; Putative endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
D Long Patch-BER factors
E DNA polymerase delta complex
E DNA polymerase epsilon complex
D Short Patch-BER factors
D Other BER factors
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E XPC-HR23B-CETN2 complex
E Cul4-DDB2 complex
E NER4 complex
D TCR (transcription coupled repair) factors
E DNA-directed RNA polymerase II complex
E Cul4-CSA complex
E Other TCR factor
D TFIIH complex
D RPA (replication factor A)
D Other NER factors
C MMR (mismatch excision repair)
D Mismatch and loop recognition factors
D MutL homologs
D DNA polymerase delta complex
D RPA (replication factor A)
D RFC (replication factor C)
D Other MMR factors
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D MRN(MRX) complex
D BRCA1-core complex
D BRCA1-A complex
D BRCA1-B complex
D BRCA1-C complex
D BRCA complex
D RecA family proteins
D Rad52 family proteins
D Rad54 family proteins
D RecQ family DNA helicases
D Bloom's syndrome complex (BTR)
D RPA (replication factor A)
D Protein phosphatase 4
D AP-5 complex
D SMC5-SMC6 complex
D Other HR factors
C NHEJ (non-homologous end-joining)
D DNA-PK complex
D MRX complex
D DNA Ligase 4 complex
D X-family DNA polymerases
D Other NHEJ factors
C FA (Fanconi anemia) pathway
D FA core complex
D FA core complex binding factors
D Bloom's syndrome complex (BTR)
D FANCD2-I complex
D Downstream FA components
D Other FA pathway factors
C Other DSBR factors
D Protein phosphatase 6
D Ubiquitin ligases
D Others
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
C B-family DNA polymerases
C A-family DNA polymerase
C Rad6 epistasis group
C Other TLS factors
B Check point factors
C Rad9-Hus1-Rad1 complex
C HRAD17(Rad24)-RFC complex
C Rad17-Mec3-Ddc1 complex
C FPC (fork protection complex)
C Triple T complex
C BAG6-UBL4A-GET4 complex
C Other check point factors
B Other factors with a suspected DNA repair function
C DNA polymerases
C Nucleases
C Helicases
C PSO4 complex
C Modulation of nucleotide pools
D PFREUD_06390 mutT; 8-dihydro-8-oxoguanine-triphosphatase (Mutator MutT protein/7,8-dihydro-8-oxoguanine-triphosphatase) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PFREUD_02720 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PFREUD_10620 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
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AProkaryotic type
B SSBR (single strand breaks repair)
C Direct repair
C BER (base exicision repair)
D DNA glycosylases
E PFREUD_17090 ung; Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E PFREUD_00870 mug; G/U mismatch-specific DNA glycosylase K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28]
E PFREUD_17180 mpg; 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E PFREUD_20170 mutY; MutY, A/G-specific DNA glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E PFREUD_23590 tagA; 3-Methyladenine DNA glycosylase I K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E PFREUD_07110 mutM2; Formamidopyrimidine-DNA glycosylase (DNA-formamidopyrimidine glycosylase) K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E PFREUD_01050 mutM1; Formamidopyrimidine-DNA glycosylase (Fapy-DNA glycosylase) (DNA-(apurinic or apyrimidinic site) lyase mutM) (AP lyase mutM) K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E PFREUD_14440 mutM3; Formamidopyrimidine-DNA glycosylase (Fapy-DNA glycosylase) (DNA-(apurinic or apyrimidinic site) lyase mutM) (AP lyase mutM) K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E PFREUD_19440 nth; Putative endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E PFREUD_05380 xthA; Exodeoxyribonuclease III/exonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E PFREUD_23010 nfo; endonuclease IV (deoxyribonuclease IV (phage-T4-induced)) K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
D DNA ligase
E PFREUD_08130 ligA; DNA ligase (NAD+) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E PFREUD_15360 polA; Putative DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E PFREUD_07500 uvrA1; Excinuclease ABC subunit A-like protein K03701 uvrA; excinuclease ABC subunit A
E PFREUD_15260 uvrA3; UvrABC system protein A (UvrA protein) (Excinuclease ABC subunit A) K03701 uvrA; excinuclease ABC subunit A
E PFREUD_15300 uvrB; UvrABC system protein B (Protein uvrB) (Excinuclease ABC subunit B) K03702 uvrB; excinuclease ABC subunit B
E PFREUD_15200 uvrC; UvrABC system protein C (Protein uvrC) (Excinuclease ABC subunit C) K03703 uvrC; excinuclease ABC subunit C
E PFREUD_09880 uvrD; DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PFREUD_06800 pcrA; ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PFREUD_09820 urvD; UvrD/REP helicase / ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PFREUD_15360 polA; Putative DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E PFREUD_08130 ligA; DNA ligase (NAD+) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D TCR (transcription coupled repair) factors
E DNA-directed RNA polymerase complex (RNAP)
F PFREUD_05600 rpoB; DNA-directed RNA polymerase beta chain (RNAP beta subunit) (Transcriptase beta chain) (RNA polymerase subunit beta) K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F PFREUD_05610 rpoC; DNA-directed RNA polymerase beta chain (RNAP beta subunit) (Transcriptase beta chain) (RNA polymerase beta subunit) K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F PFREUD_06070 rpoA; DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase subunit alpha) K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F PFREUD_11420 rpoZ; DNA-directed RNA polymerase omega chain (RNAP omega subunit) (Transcriptase omega chain) (RNA polymerase omega subunit) K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F PFREUD_17350 mfd; Transcription-repair coupling factor K03723 mfd; transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]
C MMR (mismatch excision repair)
D Mismatch and loop recognition factors
D Molecular matchmaker
D Strand discrimination factor
D DNA exonucleases
E PFREUD_16980 xseA; Exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E PFREUD_16990 xseB; Exodeoxyribonuclease 7 small subunit (Exodeoxyribonuclease VII small subunit) (Exonuclease VII small subunit) K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E PFREUD_11830 dnaE1; DNA polymerase III alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E PFREUD_00080 dnaN; DNA polymerase III, beta chain K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E PFREUD_08660 holA; DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E PFREUD_20530 dnaX; DNA polymerase III, delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E PFREUD_01710 exonuclease K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E PFREUD_03820 Hypothetical protein K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E PFREUD_08130 ligA; DNA ligase (NAD+) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E PFREUD_09880 uvrD; DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PFREUD_06800 pcrA; ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PFREUD_09820 urvD; UvrD/REP helicase / ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PFREUD_07960 ssb2; Single-stranded DNA-binding protein 2 (SSB 2) (Helix-destabilizing protein 2) K03111 ssb; single-strand DNA-binding protein
E PFREUD_23460 ssb; Single-strand binding protein K03111 ssb; single-strand DNA-binding protein
E PFREUD_02730 naeIV; NaeI very short patch repair endonuclease (V.NaeI) K07458 vsr; DNA mismatch endonuclease, patch repair protein [EC:3.1.-.-]
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E PFREUD_09850 recB; Exodeoxyribonuclease V beta chain RecB K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E PFREUD_09860 recC; Exodeoxyribonuclease V gamma subunit RecC K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E PFREUD_09840 recD; Probable exodeoxyribonuclease V alpha chain RecD K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E PFREUD_13130 recA; RecA (Recombinase A) K03553 recA; recombination protein RecA
E PFREUD_11710 ruvA; Holliday junction ATP-dependent DNA helicase K03550 ruvA; holliday junction DNA helicase RuvA
E PFREUD_11700 ruvB; Holliday junction ATP-dependent DNA helicase K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E PFREUD_11720 ruvC; Crossover junction endodeoxyribonuclease (Holliday junction nuclease) (Holliday junction resolvase) K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E PFREUD_11400 priA; Primosomal protein N K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E PFREUD_04360 sbcC; ATP-dependent dsDNA exonuclease SbcC K03546 sbcC; DNA repair protein SbcC/Rad50
E PFREUD_04370 sbcD; SbcD, DNA repair exonuclease K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E PFREUD_13130 recA; RecA (Recombinase A) K03553 recA; recombination protein RecA
E PFREUD_20150 sms; DNA repair protein K04485 radA; DNA repair protein RadA/Sms
E PFREUD_00090 recF; DNA replication and repair protein recF K03629 recF; DNA replication and repair protein RecF
E PFREUD_14510 recG; ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E PFREUD_08950 recO; DNA repair protein recO (Recombination protein O) K03584 recO; DNA repair protein RecO (recombination protein O)
E PFREUD_03840 recR; Recombination protein recR K06187 recR; recombination protein RecR
E PFREUD_13660 recN; DNA repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
E PFREUD_11710 ruvA; Holliday junction ATP-dependent DNA helicase K03550 ruvA; holliday junction DNA helicase RuvA
E PFREUD_11700 ruvB; Holliday junction ATP-dependent DNA helicase K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E PFREUD_11720 ruvC; Crossover junction endodeoxyribonuclease (Holliday junction nuclease) (Holliday junction resolvase) K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E PFREUD_03690 CRISPR-associated protein Cas1/Cas4 K15342 cas1; CRISP-associated protein Cas1
D Archaeal homologous recombinant proteins
E PFREUD_04360 sbcC; ATP-dependent dsDNA exonuclease SbcC K03546 sbcC; DNA repair protein SbcC/Rad50
E PFREUD_04370 sbcD; SbcD, DNA repair exonuclease K03547 sbcD; DNA repair protein SbcD/Mre11
C NHEJ (non-homologous end-joining)
D Two-component NHEJ DNA repair complex
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F PFREUD_00160 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F PFREUD_12800 gyrA2; DNA gyrase subunit A (DNA topoisomerase (ATP-hydrolysing)) K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F PFREUD_00150 gyrB2; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F PFREUD_12820 gyrB1; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F PFREUD_20560 topA; DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F PFREUD_08950 recO; DNA repair protein recO (Recombination protein O) K03584 recO; DNA repair protein RecO (recombination protein O)
F PFREUD_03840 recR; Recombination protein recR K06187 recR; recombination protein RecR
F PFREUD_08130 ligA; DNA ligase (NAD+) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
E Supressor
F PFREUD_07500 uvrA1; Excinuclease ABC subunit A-like protein K03701 uvrA; excinuclease ABC subunit A
F PFREUD_15260 uvrA3; UvrABC system protein A (UvrA protein) (Excinuclease ABC subunit A) K03701 uvrA; excinuclease ABC subunit A
F PFREUD_15300 uvrB; UvrABC system protein B (Protein uvrB) (Excinuclease ABC subunit B) K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D PFREUD_07630 dinB; Nucleotidyltransferase/DNA polymerase involved in DNA repair (DNA polymerase IV) K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D PFREUD_15620 dinP; DNA-directed DNA polymerase K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D PFREUD_21250 umuC_rumB; DNA-directed DNA polymerase K03502 umuC; DNA polymerase V
D PFREUD_21240 umuD; Prophage repressor precursor (Peptidase family S24) K03503 umuD; DNA polymerase V [EC:3.4.21.-]
C Other SOS response factors
D PFREUD_13130 recA; RecA (Recombinase A) K03553 recA; recombination protein RecA
D PFREUD_13040 lexA; LexA repressor, Peptidase S24, SOS regulatory protein dinR K01356 lexA; repressor LexA [EC:3.4.21.88]
D PFREUD_13660 recN; DNA repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
D PFREUD_15640 dnaE2; DNA polymerase III alpha subunit K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D PFREUD_07960 ssb2; Single-stranded DNA-binding protein 2 (SSB 2) (Helix-destabilizing protein 2) K03111 ssb; single-strand DNA-binding protein
D PFREUD_23460 ssb; Single-strand binding protein K03111 ssb; single-strand DNA-binding protein
D PFREUD_13120 recX; Regulatory protein RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D PFREUD_13050 dinG; ATP-dependent helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D PFREUD_13150 ATP-dependent helicase K03724 lhr; ATP-dependent helicase Lhr and Lhr-like helicase [EC:5.6.2.6 5.6.2.4]
C Modulation of nucleotide pools
D PFREUD_06390 mutT; 8-dihydro-8-oxoguanine-triphosphatase (Mutator MutT protein/7,8-dihydro-8-oxoguanine-triphosphatase) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PFREUD_02720 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PFREUD_10620 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PFREUD_19940 NUDIX hydrolase NTP pyrophosphohydrolases including oxidative damage repair enzymes K23258 mutT1; 8-oxo-(d)GTP phosphatase [EC:3.6.1.69]
D PFREUD_13640 nudF; ADP-ribose pyrophosphatase K01554 K01554; 8-oxo-dGDP phosphatase [EC:3.6.1.58]
D PFREUD_13010 nrdJ; Vitamin B12-dependent ribonucleotide reductase (Ribonucleoside-diphosphate reductase NrdJ) K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
C Others
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#[ BRITE | KEGG2 | KEGG ]
#Last updated: March 29, 2024